Mapping QC
Column
Global mapping statistics
| Total_Pairs | 174732758 | 100% |
| Total_Pairs_Mapped | 171934385 | 98.4% |
| Total_Uniq_Mapped | 161627534 | 92.5% |
| Total_Mito_Mapped | 4383154 | 2.5% |
| Total_Dups | 54041122 | 30.9% |
| Total_Pairs_MAPQ30 | 157385805 | 90.1% |
| Total_Mito_MAPQ30 | 3493930 | 2% |
| Total_Dups_MAPQ30 | 49368041 | 28.3% |
Column
Mapping statistics for cell barcodes
| Estimated # of cells | 2562 |
| Fraction of MAPQ30 in cells | 63.6% |
| Library Complexity (non redudant fraction) | 72.4% |
Cell barcodes QC
Row
TSS enrichment score profile
Overlapping with sequence annotated regions
Overlapping statistics
| Fraction in peaks | 62.3% |
| Fraction in mitocondrial chromosome | 1.4% |
| Fraction in promoters | 32.7% |
| Fraction in Enhancers(ENCODE) | 26.1% |
| Fraction in TSS | 29.6% |
Row
Distribution of fragments
Total fragments VS fraction in peaks
Distribution of Insert Size
Downstream Analysis
Column
Clustering
Total reads per cell
Column
Motif Analysis
Column
Footprinting Analysis: Comparing two clusters
An example
